An open and transparent process to select ELIXIR Node Services as implemented by ELIXIR-UK

Hancock, John M.; Game, Alf; Ponting, Chris P.; Goble, Carole

doi:10.12688/f1000research.10473.2

Cited by 4 publications

(1 citation statement)

References 11 publications

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“…This resulted in the establishment of successful national training initiatives (see “ELIXIR UK training in the UK” section), focusing on up-skilling the UK research community, and developing a coherent bioinformatics training programme across the UK, coordinating the activities of a growing network of bioinformatics training centres. Three of these centres have also been recognised as ELIXIR-UK resources, through an open and transparent mechanism for identifying resources suitable for contribution to ELIXIR 1 : these are the Bioinformatics Training programme of the University of Cambridge ; the Birmingham Metabolomics Training Centre ; and the Edinburgh Genomics training programme . Together, these centres offer in excess of 150 high-quality practical bioinformatics training courses each year, focusing on a wide range of topics, from basic bioinformatics skills to advanced data analysis; over 2,500 people (largely UK-based scientists) are trained every year by these three centres combined.…”

Section: Introductionmentioning

confidence: 99%

ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR

et al. 2017

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ELIXIR-UK is the UK node of ELIXIR, the European infrastructure for life science data. Since its foundation in 2014, ELIXIR-UK has played a leading role in training both within the UK and in the ELIXIR Training Platform, which coordinates and delivers training across all ELIXIR members. ELIXIR-UK contributes to the Training Platform’s coordination and supports the development of training to address key skill gaps amongst UK scientists. As part of this work it acts as a conduit for nationally-important bioinformatics training resources to promote their activities to the ELIXIR community. ELIXIR-UK also leads ELIXIR’s flagship Training Portal, TeSS, which collects information about a diverse range of training and makes it easily accessible to the community. ELIXIR-UK also works with others to provide key digital skills training, partnering with the Software Sustainability Institute to provide Software Carpentry training to the ELIXIR community and to establish the Data Carpentry initiative, and taking a lead role amongst national stakeholders to deliver the StaTS project – a coordinated effort to drive engagement with training in statistics.

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Section: Introductionmentioning

confidence: 99%

ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR

et al. 2017

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GWAS Central: an expanding resource for finding and visualising genotype and phenotype data from genome-wide association studies

Beck

Rowlands

Shorter

et al. 2022

Nucleic Acids Research

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The GWAS Central resource gathers and curates extensive summary-level genome-wide association study (GWAS) data and puts a range of user-friendly but powerful website tools for the comparison and visualisation of GWAS data at the fingertips of researchers. Through our continued efforts to harmonise and import data received from GWAS authors and consortia, and data sets actively collected from public sources, the database now contains over 72.5 million P-values for over 5000 studies testing over 7.4 million unique genetic markers investigating over 1700 unique phenotypes. Here, we describe an update to integrate this extensive data collection with mouse disease model data to support insights into the functional impact of human genetic variation. GWAS Central has expanded to include mouse gene–phenotype associations observed during mouse gene knockout screens. To allow similar cross-species phenotypes to be compared, terms from mammalian and human phenotype ontologies have been mapped. New interactive interfaces to find, correlate and view human and mouse genotype–phenotype associations are included in the website toolkit. Additionally, the integrated browser for interrogating multiple association data sets has been updated and a GA4GH Beacon API endpoint has been added for discovering variants tested in GWAS. The GWAS Central resource is accessible at https://www.gwascentral.org/.

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Genenames.org: the HGNC resources in 2023

Seal

Braschi

Gray

et al. 2022

Nucleic Acids Research

229

120

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The HUGO Gene Nomenclature Committee (HGNC) assigns unique symbols and names to human genes. The HGNC database (www.genenames.org) currently contains over 43 000 approved gene symbols, over 19 200 of which are assigned to protein-coding genes, 14 000 to pseudogenes and nearly 9000 to non-coding RNA genes. The public website, www.genenames.org, displays all approved nomenclature within Symbol Reports that contain data curated by HGNC nomenclature advisors and links to related genomic, clinical, and proteomic information. Here, we describe updates to our resource, including improvements to our search facility and new download features.

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An open and transparent process to select ELIXIR Node Services as implemented by ELIXIR-UK

Abstract: ELIXIR is the European infrastructure established specifically for the sharing and sustainability of life science data.

Cited by 4 publications

References 11 publications

ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR

ELIXIR-UK role in bioinformatics training at the national level and across ELIXIR

GWAS Central: an expanding resource for finding and visualising genotype and phenotype data from genome-wide association studies

Genenames.org: the HGNC resources in 2023

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